Where/how can I download all coding sequences ( CDS ) of human genome?
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6.4 years ago
jamesxli2007 ▴ 10

As the title says, I would like to download all known CDS sequences of human genome with transcript id and exon compositions to my desktop computer for analysis. I tried to get it from BioMart on ensemble.org, it worked for small queries, but my query to load all data always times out. 

thanks

James

rna-seq sequence • 3.4k views
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Over here

If you know perl, and use Linux,this will help as well.

They don't have transcript IDs but they have the gene ids, gene names, genome accession number, and coding sequence positions. Don't think they keep the UTRs. There's a unique CCDS id for each.

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6.4 years ago
cbio ▴ 450

You can find this pretty easily on the UCSC Table Browser.

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